# HG changeset patch
# User iarc
# Date 1461245792 14400
# Node ID 748b7a8b634c5d93ae4630c59b0fd5565a62f232
# Parent  8c682b3a7c5b0f29959f2c410cbfb7a5c2b10b5c
Uploaded

diff -r 8c682b3a7c5b -r 748b7a8b634c mutspecAnnot.xml
--- a/mutspecAnnot.xml	Tue Apr 19 03:07:11 2016 -0400
+++ b/mutspecAnnot.xml	Thu Apr 21 09:36:32 2016 -0400
@@ -169,4 +169,15 @@
 
 </help>
 
+<citations>
+    <citation type="bibtex">
+        @ARTICLE{ardin_mutspec:_2016,
+            author = {Ardin et al},
+            keywords = {Galaxy, Mutation signatures, Mutation spectra, Single base substitutions},
+            title = {{MutSpec}: a Galaxy toolbox for streamlined analyses of somatic mutation spectra in human and mouse cancer genomes},
+            url = {http://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-016-1011-z}
+        }
+    </citation>
+</citations>
+
 </tool>
diff -r 8c682b3a7c5b -r 748b7a8b634c mutspecCompare.xml
--- a/mutspecCompare.xml	Tue Apr 19 03:07:11 2016 -0400
+++ b/mutspecCompare.xml	Thu Apr 21 09:36:32 2016 -0400
@@ -106,4 +106,16 @@
 
 </help>
 
+
+<citations>
+    <citation type="bibtex">
+        @ARTICLE{ardin_mutspec:_2016,
+            author = {Ardin et al},
+            keywords = {Galaxy, Mutation signatures, Mutation spectra, Single base substitutions},
+            title = {{MutSpec}: a Galaxy toolbox for streamlined analyses of somatic mutation spectra in human and mouse cancer genomes},
+            url = {http://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-016-1011-z}
+        }
+    </citation>
+</citations>
+
 </tool>
\ No newline at end of file
diff -r 8c682b3a7c5b -r 748b7a8b634c mutspecFilter.xml
--- a/mutspecFilter.xml	Tue Apr 19 03:07:11 2016 -0400
+++ b/mutspecFilter.xml	Thu Apr 21 09:36:32 2016 -0400
@@ -12,7 +12,7 @@
         $segDup
         $esp
         $thG
-	#if $FilterdbSNP.dbSNP == "true":
+	    #if $FilterdbSNP.dbSNP == True:
            --dbSNP ${FilterdbSNP.column}
         #else
            --dbSNP 0
@@ -94,4 +94,15 @@
 
 </help>
 
+<citations>
+    <citation type="bibtex">
+        @ARTICLE{ardin_mutspec:_2016,
+            author = {Ardin et al},
+            keywords = {Galaxy, Mutation signatures, Mutation spectra, Single base substitutions},
+            title = {{MutSpec}: a Galaxy toolbox for streamlined analyses of somatic mutation spectra in human and mouse cancer genomes},
+            url = {http://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-016-1011-z}
+        }
+    </citation>
+</citations>
+
 </tool>
diff -r 8c682b3a7c5b -r 748b7a8b634c mutspecNmf.xml
--- a/mutspecNmf.xml	Tue Apr 19 03:07:11 2016 -0400
+++ b/mutspecNmf.xml	Thu Apr 21 09:36:32 2016 -0400
@@ -105,4 +105,16 @@
 
 </help>
 
+
+<citations>
+    <citation type="bibtex">
+        @ARTICLE{ardin_mutspec:_2016,
+            author = {Ardin et al},
+            keywords = {Galaxy, Mutation signatures, Mutation spectra, Single base substitutions},
+            title = {{MutSpec}: a Galaxy toolbox for streamlined analyses of somatic mutation spectra in human and mouse cancer genomes},
+            url = {http://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-016-1011-z}
+        }
+    </citation>
+</citations>
+
 </tool>
diff -r 8c682b3a7c5b -r 748b7a8b634c mutspecSplit.xml
--- a/mutspecSplit.xml	Tue Apr 19 03:07:11 2016 -0400
+++ b/mutspecSplit.xml	Thu Apr 21 09:36:32 2016 -0400
@@ -82,4 +82,16 @@
 
 </help>
 
+
+<citations>
+    <citation type="bibtex">
+        @ARTICLE{ardin_mutspec:_2016,
+            author = {Ardin et al},
+            keywords = {Galaxy, Mutation signatures, Mutation spectra, Single base substitutions},
+            title = {{MutSpec}: a Galaxy toolbox for streamlined analyses of somatic mutation spectra in human and mouse cancer genomes},
+            url = {http://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-016-1011-z}
+        }
+    </citation>
+</citations>
+
 </tool>  
diff -r 8c682b3a7c5b -r 748b7a8b634c mutspecStat.xml
--- a/mutspecStat.xml	Tue Apr 19 03:07:11 2016 -0400
+++ b/mutspecStat.xml	Thu Apr 21 09:36:32 2016 -0400
@@ -14,7 +14,7 @@
         mutspecStat_wrapper.sh
         $html
         ${GALAXY_DATA_INDEX_DIR}/shared/ucsc/chrom/
-        #if $estimateSignature.estimSign == "true":
+        #if $estimateSignature.estimSign == True:
               ${estimateSignature.estimT}
         #else
             0
@@ -154,4 +154,15 @@
 
 </help>
 
+<citations>
+    <citation type="bibtex">
+        @ARTICLE{ardin_mutspec:_2016,
+            author = {Ardin et al},
+            keywords = {Galaxy, Mutation signatures, Mutation spectra, Single base substitutions},
+            title = {{MutSpec}: a Galaxy toolbox for streamlined analyses of somatic mutation spectra in human and mouse cancer genomes},
+            url = {http://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-016-1011-z}
+        }
+    </citation>
+</citations>
+
 </tool>